Pivot charging data into an integer matrix suitable for DESeq2, where each row is a tRNA and each column is a sample. Values are total abundance (charged + uncharged counts).
Arguments
- charging_data
A tibble of combined charging data with columns
ref,counts_charged,counts_uncharged, andsample_id(as returned byread_charging_multi()).- min_count
Minimum total count across all samples for a tRNA to be retained. Default
10.
Examples
results <- read_pipeline_results(
clover_example("ecoli/config.yaml"),
types = "charging"
)
abundance_count_matrix(results$charging)
#> wt-15-ctl-01 wt-15-ctl-02 wt-15-ctl-03
#> host-tRNA-Ala-GGC-1-1 298 397 113
#> host-tRNA-Ala-GGC-1-1-uncharged 4393 5014 883
#> host-tRNA-Ala-GGC-1-2 1625 1506 265
#> host-tRNA-Ala-GGC-1-2-uncharged 4391 5130 862
#> host-tRNA-Ala-TGC-1-1 518 610 160
#> host-tRNA-Ala-TGC-1-1-uncharged 3785 5079 1051
#> host-tRNA-Ala-TGC-1-2 829 808 189
#> host-tRNA-Ala-TGC-1-2-uncharged 17942 17266 2182
#> host-tRNA-Ala-TGC-1-3 2329 2191 355
#> host-tRNA-Ala-TGC-1-3-uncharged 3651 5111 937
#> host-tRNA-Arg-ACG-1-1 1414 1211 308
#> host-tRNA-Arg-ACG-1-1-uncharged 10398 10664 2213
#> host-tRNA-Arg-ACG-1-2 2365 1595 460
#> host-tRNA-Arg-ACG-1-2-uncharged 10285 10641 2236
#> host-tRNA-Arg-ACG-1-3 1462 1160 343
#> host-tRNA-Arg-ACG-1-3-uncharged 12792 13839 2607
#> host-tRNA-Arg-ACG-1-4 1718 1401 379
#> host-tRNA-Arg-ACG-1-4-uncharged 10108 10459 2188
#> host-tRNA-Arg-CCG-1-1 265 395 85
#> host-tRNA-Arg-CCG-1-1-uncharged 1483 1798 339
#> host-tRNA-Arg-CCT-1-1 183 248 39
#> host-tRNA-Arg-CCT-1-1-uncharged 601 1474 234
#> host-tRNA-Arg-TCT-1-1 397 284 115
#> host-tRNA-Arg-TCT-1-1-uncharged 2355 1995 473
#> host-tRNA-Asn-GTT-1-1 404 408 149
#> host-tRNA-Asn-GTT-1-1-uncharged 1948 2661 786
#> host-tRNA-Asn-GTT-1-2 284 281 126
#> host-tRNA-Asn-GTT-1-2-uncharged 2135 2721 771
#> host-tRNA-Asn-GTT-1-3 412 378 130
#> host-tRNA-Asn-GTT-1-3-uncharged 2043 2744 830
#> host-tRNA-Asn-GTT-1-4 388 384 152
#> host-tRNA-Asn-GTT-1-4-uncharged 17489 19662 3161
#> host-tRNA-Asp-GTC-1-1 1446 1790 1196
#> host-tRNA-Asp-GTC-1-1-uncharged 6153 7521 2884
#> host-tRNA-Asp-GTC-1-2 3312 4013 1715
#> host-tRNA-Asp-GTC-1-2-uncharged 6002 7483 2837
#> host-tRNA-Asp-GTC-1-3 3324 4068 1737
#> host-tRNA-Asp-GTC-1-3-uncharged 6183 7619 2813
#> host-tRNA-Cys-GCA-1-1 1144 1252 577
#> host-tRNA-Cys-GCA-1-1-uncharged 9652 22378 3782
#> host-tRNA-Gln-CTG-1-1 1093 809 395
#> host-tRNA-Gln-CTG-1-1-uncharged 5009 5751 1385
#> host-tRNA-Gln-CTG-1-2 2786 2736 569
#> host-tRNA-Gln-CTG-1-2-uncharged 4974 5610 1346
#> host-tRNA-Gln-TTG-1-1 930 755 390
#> host-tRNA-Gln-TTG-1-1-uncharged 8930 9915 2330
#> host-tRNA-Gln-TTG-1-2 1296 1014 493
#> host-tRNA-Gln-TTG-1-2-uncharged 3273 3511 1258
#> host-tRNA-Glu-TTC-1-1 4354 5104 1136
#> host-tRNA-Glu-TTC-1-1-uncharged 2254 2857 1106
#> host-tRNA-Glu-TTC-1-2 4478 4920 1166
#> host-tRNA-Glu-TTC-1-2-uncharged 2272 2896 1116
#> host-tRNA-Glu-TTC-1-3 1167 1229 595
#> host-tRNA-Glu-TTC-1-3-uncharged 6620 7258 1719
#> host-tRNA-Glu-TTC-1-4 1216 1244 606
#> host-tRNA-Glu-TTC-1-4-uncharged 12217 14467 2315
#> host-tRNA-Gly-CCC-1-1 315 390 193
#> host-tRNA-Gly-CCC-1-1-uncharged 2956 4926 959
#> host-tRNA-Gly-GCC-1-1 847 853 440
#> host-tRNA-Gly-GCC-1-1-uncharged 10699 15983 3373
#> host-tRNA-Gly-GCC-1-2 866 871 434
#> host-tRNA-Gly-GCC-1-2-uncharged 10778 15520 3250
#> host-tRNA-Gly-GCC-1-3 663 832 440
#> host-tRNA-Gly-GCC-1-3-uncharged 10893 16073 3368
#> host-tRNA-Gly-GCC-1-4 2149 2676 807
#> host-tRNA-Gly-GCC-1-4-uncharged 4350 7284 2406
#> host-tRNA-Gly-TCC-1-1 960 1245 404
#> host-tRNA-Gly-TCC-1-1-uncharged 6275 9090 1781
#> host-tRNA-His-GTG-1-1 1182 1154 476
#> host-tRNA-His-GTG-1-1-uncharged 9593 11585 2434
#> host-tRNA-Ile-GAT-1-1 2587 3353 8446
#> host-tRNA-Ile-GAT-1-1-uncharged 11402 15346 22236
#> host-tRNA-Ile-GAT-1-2 2132 2752 7240
#> host-tRNA-Ile-GAT-1-2-uncharged 11087 14972 21708
#> host-tRNA-Ile-GAT-1-3 2575 3397 8516
#> host-tRNA-Ile-GAT-1-3-uncharged 11380 15087 22204
#> host-tRNA-Ile2-CAT-1-1 561 736 1213
#> host-tRNA-Ile2-CAT-1-1-uncharged 1177 1477 1681
#> host-tRNA-Ile2-CAT-1-2 68 70 131
#> host-tRNA-Ile2-CAT-1-2-uncharged 160 344 257
#> host-tRNA-Leu-CAA-1-1 1375 1792 352
#> host-tRNA-Leu-CAA-1-1-uncharged 3416 5383 846
#> host-tRNA-Leu-CAG-1-1 1331 1462 362
#> host-tRNA-Leu-CAG-1-1-uncharged 6177 8020 1741
#> host-tRNA-Leu-CAG-1-2 1470 1323 382
#> host-tRNA-Leu-CAG-1-2-uncharged 14096 14284 2040
#> host-tRNA-Leu-CAG-1-3 808 978 330
#> host-tRNA-Leu-CAG-1-3-uncharged 4909 6241 1622
#> host-tRNA-Leu-CAG-1-4 4136 3842 496
#> host-tRNA-Leu-CAG-1-4-uncharged 14299 14516 2088
#> host-tRNA-Leu-GAG-1-1 942 1109 265
#> host-tRNA-Leu-GAG-1-1-uncharged 8118 10718 1732
#> host-tRNA-Leu-TAA-1-1 1719 2062 611
#> host-tRNA-Leu-TAA-1-1-uncharged 7825 10883 2220
#> host-tRNA-Leu-TAG-1-1 1995 1918 437
#> host-tRNA-Leu-TAG-1-1-uncharged 5033 5245 1259
#> host-tRNA-Lys-TTT-1-1 831 799 538
#> host-tRNA-Lys-TTT-1-1-uncharged 6171 5512 1786
#> host-tRNA-Lys-TTT-1-2 1952 1297 835
#> host-tRNA-Lys-TTT-1-2-uncharged 2121 2294 910
#> host-tRNA-Lys-TTT-1-3 890 819 516
#> host-tRNA-Lys-TTT-1-3-uncharged 6045 5443 1897
#> host-tRNA-Lys-TTT-1-4 683 607 380
#> host-tRNA-Lys-TTT-1-4-uncharged 6113 5567 1760
#> host-tRNA-Lys-TTT-1-5 645 627 375
#> host-tRNA-Lys-TTT-1-5-uncharged 2181 2313 910
#> host-tRNA-Lys-TTT-1-6 676 599 324
#> host-tRNA-Lys-TTT-1-6-uncharged 3569 3536 1599
#> host-tRNA-Met-CAT-1-1 1397 1354 655
#> host-tRNA-Met-CAT-1-1-uncharged 7632 8773 2102
#> host-tRNA-Met-CAT-1-2 1414 1322 598
#> host-tRNA-Met-CAT-1-2-uncharged 3124 3830 1453
#> host-tRNA-Phe-GAA-1-1 2351 2876 863
#> host-tRNA-Phe-GAA-1-1-uncharged 2001 2985 846
#> host-tRNA-Phe-GAA-1-2 503 778 416
#> host-tRNA-Phe-GAA-1-2-uncharged 2068 2978 1057
#> host-tRNA-Pro-CGG-1-1 1528 1459 353
#> host-tRNA-Pro-CGG-1-1-uncharged 10789 15539 2880
#> host-tRNA-Pro-GGG-1-1 302 319 58
#> host-tRNA-Pro-GGG-1-1-uncharged 1867 2582 396
#> host-tRNA-Pro-TGG-1-1 1212 1166 313
#> host-tRNA-Pro-TGG-1-1-uncharged 12187 13737 2015
#> host-tRNA-SeC-TCA-1-1 44 52 31
#> host-tRNA-SeC-TCA-1-1-uncharged 1203 5655 821
#> host-tRNA-Ser-CGA-1-1 109 135 301
#> host-tRNA-Ser-CGA-1-1-uncharged 1495 4108 1917
#> host-tRNA-Ser-GCT-1-1 1844 2429 1377
#> host-tRNA-Ser-GCT-1-1-uncharged 9363 11587 3636
#> host-tRNA-Ser-GGA-1-1 1294 1064 586
#> host-tRNA-Ser-GGA-1-1-uncharged 5680 5760 1672
#> host-tRNA-Ser-GGA-1-2 283 560 421
#> host-tRNA-Ser-GGA-1-2-uncharged 3082 4711 1608
#> host-tRNA-Ser-TGA-1-1 972 1275 855
#> host-tRNA-Ser-TGA-1-1-uncharged 6956 8504 2874
#> host-tRNA-Thr-CGT-1-1 526 623 591
#> host-tRNA-Thr-CGT-1-1-uncharged 2196 4671 1568
#> host-tRNA-Thr-CGT-1-2 6 11 227
#> host-tRNA-Thr-CGT-1-2-uncharged 340 1931 756
#> host-tRNA-Thr-GGT-1-1 1320 1155 2287
#> host-tRNA-Thr-GGT-1-1-uncharged 5373 8810 4505
#> host-tRNA-Thr-GGT-1-2 1520 1226 2481
#> host-tRNA-Thr-GGT-1-2-uncharged 8425 10975 5763
#> host-tRNA-Thr-TGT-1-1 2829 2962 3106
#> host-tRNA-Thr-TGT-1-1-uncharged 5893 8405 4938
#> host-tRNA-Trp-CCA-1-1 1475 2254 1518
#> host-tRNA-Trp-CCA-1-1-uncharged 9567 30025 7063
#> host-tRNA-Tyr-GTA-1-1 1896 1942 608
#> host-tRNA-Tyr-GTA-1-1-uncharged 8859 10835 2297
#> host-tRNA-Tyr-GTA-1-2 646 698 528
#> host-tRNA-Tyr-GTA-1-2-uncharged 3179 4374 1771
#> host-tRNA-Tyr-GTA-1-3 748 749 567
#> host-tRNA-Tyr-GTA-1-3-uncharged 3263 4373 1900
#> host-tRNA-Val-GAC-1-1 494 727 1256
#> host-tRNA-Val-GAC-1-1-uncharged 3122 4556 3419
#> host-tRNA-Val-GAC-1-2 1006 1287 2426
#> host-tRNA-Val-GAC-1-2-uncharged 3732 4447 5318
#> host-tRNA-Val-TAC-1-1 1390 1290 1110
#> host-tRNA-Val-TAC-1-1-uncharged 1693 2929 2217
#> host-tRNA-Val-TAC-1-2 574 546 969
#> host-tRNA-Val-TAC-1-2-uncharged 3274 4271 2426
#> host-tRNA-Val-TAC-1-3 543 537 960
#> host-tRNA-Val-TAC-1-3-uncharged 3245 4307 2475
#> host-tRNA-Val-TAC-1-4 451 414 856
#> host-tRNA-Val-TAC-1-4-uncharged 1450 2617 2119
#> host-tRNA-Val-TAC-1-5 523 475 948
#> host-tRNA-Val-TAC-1-5-uncharged 1507 2511 2202
#> host-tRNA-fMet-CAT-1-1 670 503 198
#> host-tRNA-fMet-CAT-1-1-uncharged 9125 9696 1798
#> host-tRNA-fMet-CAT-1-2 618 417 152
#> host-tRNA-fMet-CAT-1-2-uncharged 6540 7277 1456
#> host-tRNA-fMet-CAT-1-3 695 589 206
#> host-tRNA-fMet-CAT-1-3-uncharged 13176 13625 2355
#> host-tRNA-fMet-CAT-1-4 536 439 199
#> host-tRNA-fMet-CAT-1-4-uncharged 7013 8754 1887
#> phage-tRNA-Arg-TCT 8 3 2
#> phage-tRNA-Arg-TCT-uncharged 472 1646 230
#> phage-tRNA-Gln-TTG 22 39 18
#> phage-tRNA-Gln-TTG-uncharged 2326 15249 2052
#> phage-tRNA-Gly-TCC 27 33 249
#> phage-tRNA-Gly-TCC-uncharged 1966 12237 1562
#> phage-tRNA-Ile2-CAT 9 8 11
#> phage-tRNA-Ile2-CAT-uncharged 502 1989 316
#> phage-tRNA-Leu-TAA 10 7 22
#> phage-tRNA-Leu-TAA-uncharged 307 1431 394
#> phage-tRNA-Pro-TGG 11 9 7
#> phage-tRNA-Pro-TGG-uncharged 657 1415 335
#> phage-tRNA-Ser-TGA 2 5 13
#> phage-tRNA-Ser-TGA-uncharged 461 2112 357
#> phage-tRNA-Thr-TGT 12 4 28
#> phage-tRNA-Thr-TGT-uncharged 370 1642 354
#> wt-15-inf-01 wt-15-inf-02 wt-15-inf-03
#> host-tRNA-Ala-GGC-1-1 189 347 1253
#> host-tRNA-Ala-GGC-1-1-uncharged 3640 7133 12837
#> host-tRNA-Ala-GGC-1-2 1299 1857 4409
#> host-tRNA-Ala-GGC-1-2-uncharged 3637 7411 12592
#> host-tRNA-Ala-TGC-1-1 233 553 1706
#> host-tRNA-Ala-TGC-1-1-uncharged 3001 7304 12955
#> host-tRNA-Ala-TGC-1-2 377 728 2580
#> host-tRNA-Ala-TGC-1-2-uncharged 14696 26056 43550
#> host-tRNA-Ala-TGC-1-3 1689 2723 6043
#> host-tRNA-Ala-TGC-1-3-uncharged 2794 7352 13091
#> host-tRNA-Arg-ACG-1-1 819 1687 4539
#> host-tRNA-Arg-ACG-1-1-uncharged 7766 18225 31587
#> host-tRNA-Arg-ACG-1-2 1168 2306 6593
#> host-tRNA-Arg-ACG-1-2-uncharged 7808 18267 31848
#> host-tRNA-Arg-ACG-1-3 859 1684 4582
#> host-tRNA-Arg-ACG-1-3-uncharged 10629 27441 44117
#> host-tRNA-Arg-ACG-1-4 1065 2064 5553
#> host-tRNA-Arg-ACG-1-4-uncharged 7756 18207 31506
#> host-tRNA-Arg-CCG-1-1 216 450 1072
#> host-tRNA-Arg-CCG-1-1-uncharged 1145 2907 5217
#> host-tRNA-Arg-CCT-1-1 143 409 697
#> host-tRNA-Arg-CCT-1-1-uncharged 492 2396 2847
#> host-tRNA-Arg-TCT-1-1 188 341 894
#> host-tRNA-Arg-TCT-1-1-uncharged 1766 3431 5680
#> host-tRNA-Asn-GTT-1-1 322 832 1332
#> host-tRNA-Asn-GTT-1-1-uncharged 1796 4449 8021
#> host-tRNA-Asn-GTT-1-2 265 633 1136
#> host-tRNA-Asn-GTT-1-2-uncharged 1802 4673 8112
#> host-tRNA-Asn-GTT-1-3 330 787 1386
#> host-tRNA-Asn-GTT-1-3-uncharged 1884 4619 8147
#> host-tRNA-Asn-GTT-1-4 311 748 1350
#> host-tRNA-Asn-GTT-1-4-uncharged 13500 36819 52433
#> host-tRNA-Asp-GTC-1-1 1002 2253 6231
#> host-tRNA-Asp-GTC-1-1-uncharged 4831 13889 22316
#> host-tRNA-Asp-GTC-1-2 2492 6817 13128
#> host-tRNA-Asp-GTC-1-2-uncharged 4590 13371 21800
#> host-tRNA-Asp-GTC-1-3 2475 6772 13054
#> host-tRNA-Asp-GTC-1-3-uncharged 4848 13679 21965
#> host-tRNA-Cys-GCA-1-1 771 1753 3211
#> host-tRNA-Cys-GCA-1-1-uncharged 7820 35533 38003
#> host-tRNA-Gln-CTG-1-1 588 900 2923
#> host-tRNA-Gln-CTG-1-1-uncharged 3656 9860 15997
#> host-tRNA-Gln-CTG-1-2 1986 4750 8603
#> host-tRNA-Gln-CTG-1-2-uncharged 3746 9893 15781
#> host-tRNA-Gln-TTG-1-1 468 860 2629
#> host-tRNA-Gln-TTG-1-1-uncharged 6998 18640 28429
#> host-tRNA-Gln-TTG-1-2 715 1255 3555
#> host-tRNA-Gln-TTG-1-2-uncharged 2267 5463 11335
#> host-tRNA-Glu-TTC-1-1 3289 4582 14583
#> host-tRNA-Glu-TTC-1-1-uncharged 1470 2719 8837
#> host-tRNA-Glu-TTC-1-2 3322 4612 14438
#> host-tRNA-Glu-TTC-1-2-uncharged 1486 2625 8931
#> host-tRNA-Glu-TTC-1-3 674 1064 4757
#> host-tRNA-Glu-TTC-1-3-uncharged 4605 7333 22484
#> host-tRNA-Glu-TTC-1-4 660 1024 4757
#> host-tRNA-Glu-TTC-1-4-uncharged 9092 12699 33682
#> host-tRNA-Gly-CCC-1-1 186 396 1191
#> host-tRNA-Gly-CCC-1-1-uncharged 2454 8408 11163
#> host-tRNA-Gly-GCC-1-1 343 747 2027
#> host-tRNA-Gly-GCC-1-1-uncharged 8925 30304 38373
#> host-tRNA-Gly-GCC-1-2 337 770 2041
#> host-tRNA-Gly-GCC-1-2-uncharged 8970 29743 37845
#> host-tRNA-Gly-GCC-1-3 303 662 1977
#> host-tRNA-Gly-GCC-1-3-uncharged 9020 29785 38164
#> host-tRNA-Gly-GCC-1-4 1455 4431 7532
#> host-tRNA-Gly-GCC-1-4-uncharged 3483 10526 15504
#> host-tRNA-Gly-TCC-1-1 539 1267 3753
#> host-tRNA-Gly-TCC-1-1-uncharged 4718 11827 22581
#> host-tRNA-His-GTG-1-1 896 2210 4190
#> host-tRNA-His-GTG-1-1-uncharged 7567 23432 32560
#> host-tRNA-Ile-GAT-1-1 2064 6088 15069
#> host-tRNA-Ile-GAT-1-1-uncharged 9234 29026 48675
#> host-tRNA-Ile-GAT-1-2 1819 4867 12539
#> host-tRNA-Ile-GAT-1-2-uncharged 9382 28581 47964
#> host-tRNA-Ile-GAT-1-3 1949 5983 15104
#> host-tRNA-Ile-GAT-1-3-uncharged 9334 28943 48729
#> host-tRNA-Ile2-CAT-1-1 426 1549 2825
#> host-tRNA-Ile2-CAT-1-1-uncharged 888 3029 4832
#> host-tRNA-Ile2-CAT-1-2 62 173 355
#> host-tRNA-Ile2-CAT-1-2-uncharged 283 706 1352
#> host-tRNA-Leu-CAA-1-1 897 3981 4685
#> host-tRNA-Leu-CAA-1-1-uncharged 2505 14084 12745
#> host-tRNA-Leu-CAG-1-1 276 1876 4895
#> host-tRNA-Leu-CAG-1-1-uncharged 1531 11372 18263
#> host-tRNA-Leu-CAG-1-2 289 1499 4440
#> host-tRNA-Leu-CAG-1-2-uncharged 4179 22799 27579
#> host-tRNA-Leu-CAG-1-3 297 1194 2865
#> host-tRNA-Leu-CAG-1-3-uncharged 1942 11180 14692
#> host-tRNA-Leu-CAG-1-4 1159 5381 9246
#> host-tRNA-Leu-CAG-1-4-uncharged 4269 22451 27698
#> host-tRNA-Leu-GAG-1-1 515 1309 4374
#> host-tRNA-Leu-GAG-1-1-uncharged 5879 19481 28787
#> host-tRNA-Leu-TAA-1-1 903 3083 7178
#> host-tRNA-Leu-TAA-1-1-uncharged 5915 24317 29362
#> host-tRNA-Leu-TAG-1-1 1358 2885 6371
#> host-tRNA-Leu-TAG-1-1-uncharged 3656 10423 16914
#> host-tRNA-Lys-TTT-1-1 589 1192 3062
#> host-tRNA-Lys-TTT-1-1-uncharged 5795 12870 19187
#> host-tRNA-Lys-TTT-1-2 1084 2248 5817
#> host-tRNA-Lys-TTT-1-2-uncharged 1813 5834 9445
#> host-tRNA-Lys-TTT-1-3 559 1260 2974
#> host-tRNA-Lys-TTT-1-3-uncharged 5554 12513 18721
#> host-tRNA-Lys-TTT-1-4 463 1087 2326
#> host-tRNA-Lys-TTT-1-4-uncharged 5777 12906 18868
#> host-tRNA-Lys-TTT-1-5 517 1068 2293
#> host-tRNA-Lys-TTT-1-5-uncharged 1842 5730 9451
#> host-tRNA-Lys-TTT-1-6 484 1066 2293
#> host-tRNA-Lys-TTT-1-6-uncharged 2522 7095 13552
#> host-tRNA-Met-CAT-1-1 1047 2252 4352
#> host-tRNA-Met-CAT-1-1-uncharged 6652 18622 24814
#> host-tRNA-Met-CAT-1-2 1059 2360 4344
#> host-tRNA-Met-CAT-1-2-uncharged 2556 7860 12609
#> host-tRNA-Phe-GAA-1-1 1829 4494 8020
#> host-tRNA-Phe-GAA-1-1-uncharged 1663 5081 8438
#> host-tRNA-Phe-GAA-1-2 400 1024 2122
#> host-tRNA-Phe-GAA-1-2-uncharged 1562 4806 8724
#> host-tRNA-Pro-CGG-1-1 906 1853 3585
#> host-tRNA-Pro-CGG-1-1-uncharged 9594 24794 33025
#> host-tRNA-Pro-GGG-1-1 158 113 676
#> host-tRNA-Pro-GGG-1-1-uncharged 1622 1622 5500
#> host-tRNA-Pro-TGG-1-1 567 1067 3469
#> host-tRNA-Pro-TGG-1-1-uncharged 10964 22136 37706
#> host-tRNA-SeC-TCA-1-1 10 39 120
#> host-tRNA-SeC-TCA-1-1-uncharged 954 8450 7521
#> host-tRNA-Ser-CGA-1-1 76 175 455
#> host-tRNA-Ser-CGA-1-1-uncharged 1184 6419 6981
#> host-tRNA-Ser-GCT-1-1 1498 3503 6094
#> host-tRNA-Ser-GCT-1-1-uncharged 6656 20859 25566
#> host-tRNA-Ser-GGA-1-1 819 2029 3823
#> host-tRNA-Ser-GGA-1-1-uncharged 3313 11433 15376
#> host-tRNA-Ser-GGA-1-2 298 621 1733
#> host-tRNA-Ser-GGA-1-2-uncharged 2297 8491 11976
#> host-tRNA-Ser-TGA-1-1 746 2051 3632
#> host-tRNA-Ser-TGA-1-1-uncharged 4578 15567 21062
#> host-tRNA-Thr-CGT-1-1 421 1250 2613
#> host-tRNA-Thr-CGT-1-1-uncharged 1751 7762 9919
#> host-tRNA-Thr-CGT-1-2 5 26 86
#> host-tRNA-Thr-CGT-1-2-uncharged 308 2739 2713
#> host-tRNA-Thr-GGT-1-1 1190 2680 6667
#> host-tRNA-Thr-GGT-1-1-uncharged 5023 15182 20943
#> host-tRNA-Thr-GGT-1-2 1391 2838 7123
#> host-tRNA-Thr-GGT-1-2-uncharged 6717 19168 27673
#> host-tRNA-Thr-TGT-1-1 2249 5596 11482
#> host-tRNA-Thr-TGT-1-1-uncharged 4798 14464 22086
#> host-tRNA-Trp-CCA-1-1 933 3141 6702
#> host-tRNA-Trp-CCA-1-1-uncharged 8130 48380 51116
#> host-tRNA-Tyr-GTA-1-1 1172 2695 6276
#> host-tRNA-Tyr-GTA-1-1-uncharged 6089 19576 28677
#> host-tRNA-Tyr-GTA-1-2 407 970 2132
#> host-tRNA-Tyr-GTA-1-2-uncharged 2268 7964 11177
#> host-tRNA-Tyr-GTA-1-3 453 1050 2527
#> host-tRNA-Tyr-GTA-1-3-uncharged 2307 7945 11159
#> host-tRNA-Val-GAC-1-1 441 1317 3036
#> host-tRNA-Val-GAC-1-1-uncharged 2613 7984 12967
#> host-tRNA-Val-GAC-1-2 847 1947 5453
#> host-tRNA-Val-GAC-1-2-uncharged 3135 6396 15666
#> host-tRNA-Val-TAC-1-1 1326 2142 4900
#> host-tRNA-Val-TAC-1-1-uncharged 1676 5205 7548
#> host-tRNA-Val-TAC-1-2 532 1080 2489
#> host-tRNA-Val-TAC-1-2-uncharged 3092 6907 10744
#> host-tRNA-Val-TAC-1-3 490 969 2523
#> host-tRNA-Val-TAC-1-3-uncharged 3099 6999 11073
#> host-tRNA-Val-TAC-1-4 396 758 1949
#> host-tRNA-Val-TAC-1-4-uncharged 1536 4461 6812
#> host-tRNA-Val-TAC-1-5 537 863 2183
#> host-tRNA-Val-TAC-1-5-uncharged 1547 4583 6390
#> host-tRNA-fMet-CAT-1-1 491 1050 1753
#> host-tRNA-fMet-CAT-1-1-uncharged 6901 21186 27608
#> host-tRNA-fMet-CAT-1-2 426 946 1497
#> host-tRNA-fMet-CAT-1-2-uncharged 5077 17004 22517
#> host-tRNA-fMet-CAT-1-3 505 1311 2095
#> host-tRNA-fMet-CAT-1-3-uncharged 9475 27497 36920
#> host-tRNA-fMet-CAT-1-4 357 898 1333
#> host-tRNA-fMet-CAT-1-4-uncharged 5430 18050 21916
#> phage-tRNA-Arg-TCT 180 129 718
#> phage-tRNA-Arg-TCT-uncharged 2998 4370 8971
#> phage-tRNA-Gln-TTG 441 593 1307
#> phage-tRNA-Gln-TTG-uncharged 5355 27963 26165
#> phage-tRNA-Gly-TCC 341 634 1391
#> phage-tRNA-Gly-TCC-uncharged 5564 26127 23572
#> phage-tRNA-Ile2-CAT 501 720 1974
#> phage-tRNA-Ile2-CAT-uncharged 2599 6242 9170
#> phage-tRNA-Leu-TAA 241 452 1339
#> phage-tRNA-Leu-TAA-uncharged 2924 7488 10550
#> phage-tRNA-Pro-TGG 109 137 406
#> phage-tRNA-Pro-TGG-uncharged 2863 5846 9340
#> phage-tRNA-Ser-TGA 153 283 643
#> phage-tRNA-Ser-TGA-uncharged 1674 5941 7552
#> phage-tRNA-Thr-TGT 550 796 1799
#> phage-tRNA-Thr-TGT-uncharged 2736 6123 7923